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mmu_ciClk4_862

Basic information of circular RNA
PanCircBase ID:

mmu_ciClk4_862

mm39_Chr. Position ID:

chr11|51162849|51163711|+

Gene name:

Clk4

Transcript:

ENSMUST00000130641.8

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

4

Exon/intron offsets:

0

Genomic length:

862

Exon/intron sizes in nt:

862

Flanking exon/introns:

chr11:51162849-51163904

Splice length:

862

Other database IDs:

​

​

Human Ortholog IDs:
Mature spliced Sequence:

GTATGAGTGGTTTGTTTTTATTTGGAATGGATTGATTGTAAAGCTCTGAAAGGGTGATAAGTTTCTAAGTTTCTTAATGCAATTTGGATATGCTGTAATTAAATTCATGTTACTGGAGTCCTTAAAGGAAGTGTATACATTCTCATAATTGACCACCTGTGTGTTAGTTAGTCTTCATTTTGCCCACACACTCATTCTGCAAAACAGATCATGCATGAGTTTGTTGGTTTTAATAGTAAGAACATCTTATTTTGTGGTTGTATAATATATTAAAAATGAGGCACCCATTTTTTTCTCCTTTGAATGTAAAGATTTTTTTATTTTGAAAGAAACTGCTTTACTGGTAGTTGGAAATAACTCAGGCAGGTCGCCTTGCTGAGGTGTTGAGCCATTGCTGACTCCTGTGTGGTCTAGCTCCTCGGACAGCACATCATTGTCTGCGTTAATTTCCTGAAGTTGTGAACCTGGGTGCTGAGGGGAAAATGTACTGAGAAAGCTAGACATCTTTTATTTGTAAATTTTGAGTTACCATGTCCCTCCCCCAAGTTTTTTTTCTATAGAACTAGCAGTTACTAGATGGAAGATTGAAATTAGTCTTTACTTCCCCTTCTTACTATGATGATGTCCACTTTTAAATGTTGCTAAAAGAGAACAATTTCAACTAATCTTGACATTTTCCTGACTAACTAGACAACCCAATTCACAGCATATGGTTATAGCAAAAATTAGTAAATCATGACAATGCATTCTTTAAACTTCAGACTTCAATTAAATCAGTATTTTAAAGAGACAATTGTGTTGTTTTTTTCTATTGCCACTTTAAGTATCTTATCTGAAAATCTGTTCCTTGCCATGTTTTTCT

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

TCAGTATTTTAAAGAGACAATTGTGT

55.63

TCACCCTTTCAGAGCTTTACA

56.86

146

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

TTTTAAAGAGACAATTGTGTTGTTTT

55.5

TCACCCTTTCAGAGCTTTACA

56.86

140

PCR template sequence:

CTTCAATTAAATCAGTATTTTAAAGAGACAATTGTGTTGTTTTTTTCTATTGCCACTTTAAGTATCTTATCTGAAAATCTGTTCCTTGCCATGTTTTTCTGTATGAGTGGTTTGTTTTTATTTGGAATGGATTGATTGTAAAGCTCTGAAAGGGTGATAAGTTTCTAAGTTTCTTAATGCAATTTGGATATGCTGTAATT

Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs

6

Interacting miRNAs (#binding sites)

mmu-miR-33-5p(1), mmu-miR-495-3p(1), mmu-miR-182-5p(1), mmu-miR-802-5p(1), mmu-miR-3065-5p(1), mmu-miR-574-5p(1)

siRNAs for circular RNA silencing
Junction sequence

GCCATGTTTTTCTGTATGAGTGGTTT

siRNA sets

TCATACAGAAAAACATGGC

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CICLK4_862_ORF_1

0.5582

-0.439350801

0.007595094

162

ORF sequence:

ATGACAATGCATTCTTTAAACTTCAGACTTCAATTAAATCAGTATTTTAAAGAGACAATTGTGTTGTTTTTTTCTATTGCCACTTTAAGTATCTTATCTGAAAATCTGTTCCTTGCCATGTTTTTCTGTATGAGTGGTTTGTTTTTATTTGGAATGGATTGA

Peptide sequence:

MTMHSLNFRLQLNQYFKETIVLFFSIATLSILSENLFLAMFFCMSGLFLFGMD

IRESfinder result

IRESfinder score

0.913992909

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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